noone@mail.com Analysis of Dieting study 16S data % Fri Sep 7 05:46:18 2018

(1.4.1.3.5) Plots of Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'.

Plots are shown with relation to various combinations of meta data variables and in different graphical representations. Lots of plots here.

(1.4.1.3.5.2) Iterating over all combinations of grouping variables
(1.4.1.3.5.2.1) Entire pool of samples
(1.4.1.3.5.2.2) Iterating over Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order
(1.4.1.3.5.2.2.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order: GeneSelector paired test ranking
(1.4.1.3.5.2.2.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.4.1.3.5.2.2.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.4.1.3.5.2.2.2.1.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.3.5.2.2.2.1.1.0) Table 254. Data table used for plots. Data for all pooled samples. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.5.2.2.2.1.1.0-32314b27b61.1.4.1.3.5.2.2.2.1.1.csv

.record.id feature l2fc
SB11.before.diet Bacteroides 0.06735
SB16.before.diet Bacteroides 0.19077
SB18.before.diet Bacteroides 1.82324
SB28.before.diet Bacteroides 3.14981
SB29.before.diet Bacteroides 1.50750
SB34.before.diet Bacteroides -0.03241
SB36.before.diet Bacteroides 0.67923
SB39.before.diet Bacteroides -0.43682
SB4.before.diet Bacteroides -0.06583
SB41.before.diet Bacteroides 0.01341
SB43.before.diet Bacteroides 0.17822
SB44.before.diet Bacteroides 8.23552
SB5.before.diet Bacteroides -0.53203
SB9.before.diet Bacteroides 0.61722
SB11.before.diet Prevotella 1.51593
SB16.before.diet Prevotella 1.89366
SB18.before.diet Prevotella -3.22199
SB28.before.diet Prevotella 0.00000
SB29.before.diet Prevotella 33.91631
SB34.before.diet Prevotella 0.60740
SB36.before.diet Prevotella -1.31431
SB39.before.diet Prevotella -32.24029
SB4.before.diet Prevotella -32.10777
SB41.before.diet Prevotella -1.38860
SB43.before.diet Prevotella 3.29127
SB44.before.diet Prevotella -33.70196
SB5.before.diet Prevotella -6.29889
SB9.before.diet Prevotella -5.05821
SB11.before.diet Parabacteroides -2.13445
SB16.before.diet Parabacteroides -32.80845
SB18.before.diet Parabacteroides -2.90006
SB28.before.diet Parabacteroides -0.42825
SB29.before.diet Parabacteroides 3.11750
SB34.before.diet Parabacteroides 0.00000
SB36.before.diet Parabacteroides 2.50476
SB39.before.diet Parabacteroides -0.00192
SB4.before.diet Parabacteroides -33.42970
SB41.before.diet Parabacteroides 1.19636
SB43.before.diet Parabacteroides 3.16705
SB44.before.diet Parabacteroides 0.00000
SB5.before.diet Parabacteroides -0.33072
SB9.before.diet Parabacteroides 0.22512
SB11.before.diet Faecalibacterium -1.92559
SB16.before.diet Faecalibacterium -4.19379
SB18.before.diet Faecalibacterium -7.82649
SB28.before.diet Faecalibacterium -39.29845
SB29.before.diet Faecalibacterium 38.56015
SB34.before.diet Faecalibacterium 1.08434
SB36.before.diet Faecalibacterium 1.15148
SB39.before.diet Faecalibacterium -1.16272
SB4.before.diet Faecalibacterium 2.47673
SB41.before.diet Faecalibacterium -1.93041
SB43.before.diet Faecalibacterium 2.48708
SB44.before.diet Faecalibacterium -3.94492
SB5.before.diet Faecalibacterium 2.97846
SB9.before.diet Faecalibacterium 0.18865
SB11.before.diet Unclassified_Lachnospiraceae -1.76550
SB16.before.diet Unclassified_Lachnospiraceae 1.52752
SB18.before.diet Unclassified_Lachnospiraceae -3.26271
SB28.before.diet Unclassified_Lachnospiraceae -3.31515
SB29.before.diet Unclassified_Lachnospiraceae 2.96551
SB34.before.diet Unclassified_Lachnospiraceae 0.76738
SB36.before.diet Unclassified_Lachnospiraceae -41.21786
SB39.before.diet Unclassified_Lachnospiraceae -0.67973
SB4.before.diet Unclassified_Lachnospiraceae 2.48559
SB41.before.diet Unclassified_Lachnospiraceae 1.25219
SB43.before.diet Unclassified_Lachnospiraceae -6.39665
SB44.before.diet Unclassified_Lachnospiraceae -2.48715
SB5.before.diet Unclassified_Lachnospiraceae 2.25583
SB9.before.diet Unclassified_Lachnospiraceae 1.70266
SB11.before.diet Lactobacillus 0.00000
SB16.before.diet Lactobacillus -31.22348
SB18.before.diet Lactobacillus 34.70052
SB28.before.diet Lactobacillus 0.00000
SB29.before.diet Lactobacillus 0.00000
SB34.before.diet Lactobacillus 0.00000
SB36.before.diet Lactobacillus 0.00000
SB39.before.diet Lactobacillus 0.00000
SB4.before.diet Lactobacillus 0.00000
SB41.before.diet Lactobacillus 0.00000
SB43.before.diet Lactobacillus -35.41640
SB44.before.diet Lactobacillus -33.70196
SB5.before.diet Lactobacillus 36.36195
SB9.before.diet Lactobacillus 2.71054
SB11.before.diet Enterococcus 0.00000
SB16.before.diet Enterococcus 0.00000
SB18.before.diet Enterococcus 7.27612
SB28.before.diet Enterococcus 34.04440
SB29.before.diet Enterococcus -44.75939
SB34.before.diet Enterococcus -31.83823
SB36.before.diet Enterococcus 0.00000
SB39.before.diet Enterococcus 0.00000
SB4.before.diet Enterococcus -0.07532
SB41.before.diet Enterococcus 0.00000
SB43.before.diet Enterococcus -34.83144
SB44.before.diet Enterococcus 0.00000
SB5.before.diet Enterococcus 32.19202
SB9.before.diet Enterococcus 34.98928
SB11.before.diet Alistipes 2.43748
SB16.before.diet Alistipes -42.77756
SB18.before.diet Alistipes 33.37860
SB28.before.diet Alistipes 0.00000
SB29.before.diet Alistipes 40.20153
SB34.before.diet Alistipes -2.15976
SB36.before.diet Alistipes 40.16614
SB39.before.diet Alistipes -0.36869
SB4.before.diet Alistipes 0.00000
SB41.before.diet Alistipes 0.33700
SB43.before.diet Alistipes 38.79366
SB44.before.diet Alistipes 37.52562
SB5.before.diet Alistipes -34.84467
SB9.before.diet Alistipes 0.00000
SB11.before.diet Lachnospiracea_incertae_sedis -2.71184
SB16.before.diet Lachnospiracea_incertae_sedis -0.35930
SB18.before.diet Lachnospiracea_incertae_sedis -6.31029
SB28.before.diet Lachnospiracea_incertae_sedis -41.28979
SB29.before.diet Lachnospiracea_incertae_sedis 37.08624
SB34.before.diet Lachnospiracea_incertae_sedis -0.76778
SB36.before.diet Lachnospiracea_incertae_sedis -6.25811
SB39.before.diet Lachnospiracea_incertae_sedis -0.84967
SB4.before.diet Lachnospiracea_incertae_sedis 1.23078
SB41.before.diet Lachnospiracea_incertae_sedis -2.48689
SB43.before.diet Lachnospiracea_incertae_sedis -8.50505
SB44.before.diet Lachnospiracea_incertae_sedis -2.49022
SB5.before.diet Lachnospiracea_incertae_sedis 0.45424
SB9.before.diet Lachnospiracea_incertae_sedis -0.54878
SB11.before.diet Clostridium_XI 2.63706
SB16.before.diet Clostridium_XI -1.21486
SB18.before.diet Clostridium_XI -39.44852
SB28.before.diet Clostridium_XI 1.87974
SB29.before.diet Clostridium_XI 36.23824
SB34.before.diet Clostridium_XI 1.34436
SB36.before.diet Clostridium_XI 1.54096
SB39.before.diet Clostridium_XI 2.93050
SB4.before.diet Clostridium_XI -0.44729
SB41.before.diet Clostridium_XI -35.50361
SB43.before.diet Clostridium_XI -42.58120
SB44.before.diet Clostridium_XI 0.64679
SB5.before.diet Clostridium_XI 6.06274
SB9.before.diet Clostridium_XI 40.51255
SB11.before.diet Blautia -4.89952
SB16.before.diet Blautia -0.87893
SB18.before.diet Blautia -3.25986
SB28.before.diet Blautia -33.77494
SB29.before.diet Blautia 35.50128
SB34.before.diet Blautia 2.14952
SB36.before.diet Blautia -3.82529
SB39.before.diet Blautia -1.89048
SB4.before.diet Blautia 38.18403
SB41.before.diet Blautia -1.60224
SB43.before.diet Blautia -7.12163
SB44.before.diet Blautia -0.25723
SB5.before.diet Blautia 4.16899
SB9.before.diet Blautia 4.60541
SB11.before.diet Erysipelotrichaceae_incertae_sedis -34.11297
SB16.before.diet Erysipelotrichaceae_incertae_sedis 2.76812
SB18.before.diet Erysipelotrichaceae_incertae_sedis -2.41464
SB28.before.diet Erysipelotrichaceae_incertae_sedis 0.21500
SB29.before.diet Erysipelotrichaceae_incertae_sedis -38.02761
SB34.before.diet Erysipelotrichaceae_incertae_sedis 1.24483
SB36.before.diet Erysipelotrichaceae_incertae_sedis -33.59293
SB39.before.diet Erysipelotrichaceae_incertae_sedis 4.58586
SB4.before.diet Erysipelotrichaceae_incertae_sedis 4.25315
SB41.before.diet Erysipelotrichaceae_incertae_sedis -0.99628
SB43.before.diet Erysipelotrichaceae_incertae_sedis 2.94895
SB44.before.diet Erysipelotrichaceae_incertae_sedis 1.14560
SB5.before.diet Erysipelotrichaceae_incertae_sedis 7.48980
SB9.before.diet Erysipelotrichaceae_incertae_sedis 43.94687
SB11.before.diet Roseburia -3.18365
SB16.before.diet Roseburia 0.04566
SB18.before.diet Roseburia -5.12992
SB28.before.diet Roseburia -40.74033
SB29.before.diet Roseburia 0.79558
SB34.before.diet Roseburia -0.49839
SB36.before.diet Roseburia -37.47557
SB39.before.diet Roseburia -2.70796
SB4.before.diet Roseburia 2.55271
SB41.before.diet Roseburia 2.79839
SB43.before.diet Roseburia -39.20063
SB44.before.diet Roseburia -2.34940
SB5.before.diet Roseburia 2.73959
SB9.before.diet Roseburia 1.96199
SB11.before.diet Escherichia_Shigella 34.22686
SB16.before.diet Escherichia_Shigella 39.24637
SB18.before.diet Escherichia_Shigella 0.00000
SB28.before.diet Escherichia_Shigella 42.83156
SB29.before.diet Escherichia_Shigella 0.00000
SB34.before.diet Escherichia_Shigella -31.83823
SB36.before.diet Escherichia_Shigella 0.00000
SB39.before.diet Escherichia_Shigella 0.00000
SB4.before.diet Escherichia_Shigella 0.00000
SB41.before.diet Escherichia_Shigella -30.69626
SB43.before.diet Escherichia_Shigella 0.00000
SB44.before.diet Escherichia_Shigella 35.52563
SB5.before.diet Escherichia_Shigella 10.35654
SB9.before.diet Escherichia_Shigella 2.44751
SB11.before.diet Unclassified_Clostridiales -1.07368
SB16.before.diet Unclassified_Clostridiales 2.74164
SB18.before.diet Unclassified_Clostridiales -1.75566
SB28.before.diet Unclassified_Clostridiales -1.31551

(1.4.1.3.5.2.2.2.1.1.1) Widget 266. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.4.1.3.5.2.2.2.1.1.1-3234811642eDynamic.Pivot.Table.html

(1.4.1.3.5.2.2.2.1.1.1) Widget 267. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.4.1.3.5.2.2.2.1.1.1-32333004701Dynamic.Pivot.Table.html

(1.4.1.3.5.2.2.2.1.1.1) Table 255. Summary table. Data for all pooled samples. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.5.2.2.2.1.1.1-3234c4f5d67.1.4.1.3.5.2.2.2.1.1.csv

feature mean sd median incidence
Lachnospiracea_incertae_sedis -2.41475 15.623 -1.6682838 0.21429
Unclassified_Bacteria 3.42478 9.759 0.7436285 0.64286
Erysipelotrichaceae_incertae_sedis -2.89616 20.891 1.1952141 0.64286
Clostridium_XlVa -1.27888 9.623 0.8902688 0.71429
Clostridium_XVIII 1.15648 19.283 1.0244452 0.71429
Bacteroides 1.09966 2.284 0.1844965 0.71429
Clostridium_XI -1.81447 24.179 1.4426628 0.64286
Roseburia -8.59942 16.737 -1.4238920 0.42857
Clostridium_IV 5.21107 18.195 0.7154712 0.57143
Unclassified_Clostridiales 2.17867 10.527 -0.5211893 0.42857
Unclassified_Lachnospiraceae -3.29772 11.254 0.0438215 0.50000
Prevotella -5.29339 17.674 -1.3514573 0.35714
Flavonifractor -1.46942 17.263 1.4630660 0.64286
Blautia 1.93565 17.446 -1.2405853 0.35714
Faecalibacterium -0.81110 15.564 -0.4870333 0.50000
Escherichia_Shigella 7.29286 23.424 0.0000000 0.42857
Unclassified_Bacteroidales 2.72517 9.974 0.4470498 0.57143
Unclassified_Ruminococcaceae 3.01225 10.620 0.9052180 0.57143
Ruminococcus 2.31314 18.381 -0.7470518 0.42857
Unclassified_Firmicutes -0.02199 19.632 0.3530229 0.50000
Dorea -9.16521 21.619 -0.3485104 0.42857
Clostridium_sensu_stricto 4.00088 29.802 0.0000000 0.42857
Parabacteroides -4.41591 12.284 -0.0009598 0.35714
Veillonella -5.36424 23.813 -0.4887825 0.28571
Streptococcus -1.96407 25.616 -1.1315358 0.42857
Alistipes 8.04924 26.897 0.1684993 0.50000
Gemmiger -2.37914 9.242 0.0000000 0.28571
Enterococcus -0.21447 24.341 0.0000000 0.28571
Sutterella 9.56016 16.795 0.0000000 0.35714
Turicibacter 2.42186 25.932 0.0000000 0.35714
Lactobacillus -1.89777 21.210 0.0000000 0.21429
Unclassified_Enterobacteriaceae -2.24154 22.398 0.0000000 0.28571
Akkermansia 5.20369 13.929 0.0000000 0.21429
Unclassified_Lactobacillales -1.89506 15.440 0.0000000 0.14286
Megamonas 2.29943 8.604 0.0000000 0.07143
Odoribacter 2.40811 10.749 0.0000000 0.14286
Unclassified_Burkholderiales 2.07988 8.654 0.0000000 0.07143
Parasutterella -0.27916 1.099 0.0000000 0.07143

(1.4.1.3.5.2.2.2.1.1.1) Figure 794. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/3232aa107ba.svg.

(1.4.1.3.5.2.2.2.1.1.1) Figure 795. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/3232005fc06.svg.

(1.4.1.3.5.2.2.2.1.1.1) Figure 796. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/32363020a7e.svg.

(1.4.1.3.5.2.2.2.1.1.1) Figure 797. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3231d79ca3e.svg.

(1.4.1.3.5.2.2.2.1.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.3.5.2.2.2.1.2.1) Figure 798. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/32358a3576b.svg.

(1.4.1.3.5.2.2.2.1.2.1) Figure 799. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3231c5e0a01.svg.

(1.4.1.3.5.2.2.2.1.2.1) Figure 800. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3235e09f6b3.svg.

(1.4.1.3.5.2.3) Grouping variables Drug.Before.Diet
(1.4.1.3.5.2.4) Iterating over Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order
(1.4.1.3.5.2.4.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order: GeneSelector paired test ranking
(1.4.1.3.5.2.4.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.4.1.3.5.2.4.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.4.1.3.5.2.4.2.1.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.3.5.2.4.2.1.1.0) Table 256. Data table used for plots. Data grouped by Drug.Before.Diet. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.5.2.4.2.1.1.0-323477b8add.1.4.1.3.5.2.4.2.1.1.csv

.record.id Drug.Before.Diet feature l2fc
SB11.before.diet DrugBefore_NO Bacteroides 0.06735
SB16.before.diet DrugBefore_YES Bacteroides 0.19077
SB18.before.diet DrugBefore_NO Bacteroides 1.82324
SB28.before.diet DrugBefore_YES Bacteroides 3.14981
SB29.before.diet DrugBefore_YES Bacteroides 1.50750
SB34.before.diet DrugBefore_YES Bacteroides -0.03241
SB36.before.diet DrugBefore_YES Bacteroides 0.67923
SB39.before.diet DrugBefore_YES Bacteroides -0.43682
SB4.before.diet DrugBefore_YES Bacteroides -0.06583
SB41.before.diet DrugBefore_YES Bacteroides 0.01341
SB43.before.diet DrugBefore_YES Bacteroides 0.17822
SB44.before.diet DrugBefore_YES Bacteroides 8.23552
SB5.before.diet DrugBefore_NO Bacteroides -0.53203
SB9.before.diet DrugBefore_NO Bacteroides 0.61722
SB11.before.diet DrugBefore_NO Prevotella 1.51593
SB16.before.diet DrugBefore_YES Prevotella 1.89366
SB18.before.diet DrugBefore_NO Prevotella -3.22199
SB28.before.diet DrugBefore_YES Prevotella 0.00000
SB29.before.diet DrugBefore_YES Prevotella 33.91631
SB34.before.diet DrugBefore_YES Prevotella 0.60740
SB36.before.diet DrugBefore_YES Prevotella -1.31431
SB39.before.diet DrugBefore_YES Prevotella -32.24029
SB4.before.diet DrugBefore_YES Prevotella -32.10777
SB41.before.diet DrugBefore_YES Prevotella -1.38860
SB43.before.diet DrugBefore_YES Prevotella 3.29127
SB44.before.diet DrugBefore_YES Prevotella -33.70196
SB5.before.diet DrugBefore_NO Prevotella -6.29889
SB9.before.diet DrugBefore_NO Prevotella -5.05821
SB11.before.diet DrugBefore_NO Parabacteroides -2.13445
SB16.before.diet DrugBefore_YES Parabacteroides -32.80845
SB18.before.diet DrugBefore_NO Parabacteroides -2.90006
SB28.before.diet DrugBefore_YES Parabacteroides -0.42825
SB29.before.diet DrugBefore_YES Parabacteroides 3.11750
SB34.before.diet DrugBefore_YES Parabacteroides 0.00000
SB36.before.diet DrugBefore_YES Parabacteroides 2.50476
SB39.before.diet DrugBefore_YES Parabacteroides -0.00192
SB4.before.diet DrugBefore_YES Parabacteroides -33.42970
SB41.before.diet DrugBefore_YES Parabacteroides 1.19636
SB43.before.diet DrugBefore_YES Parabacteroides 3.16705
SB44.before.diet DrugBefore_YES Parabacteroides 0.00000
SB5.before.diet DrugBefore_NO Parabacteroides -0.33072
SB9.before.diet DrugBefore_NO Parabacteroides 0.22512
SB11.before.diet DrugBefore_NO Faecalibacterium -1.92559
SB16.before.diet DrugBefore_YES Faecalibacterium -4.19379
SB18.before.diet DrugBefore_NO Faecalibacterium -7.82649
SB28.before.diet DrugBefore_YES Faecalibacterium -39.29845
SB29.before.diet DrugBefore_YES Faecalibacterium 38.56015
SB34.before.diet DrugBefore_YES Faecalibacterium 1.08434
SB36.before.diet DrugBefore_YES Faecalibacterium 1.15148
SB39.before.diet DrugBefore_YES Faecalibacterium -1.16272
SB4.before.diet DrugBefore_YES Faecalibacterium 2.47673
SB41.before.diet DrugBefore_YES Faecalibacterium -1.93041
SB43.before.diet DrugBefore_YES Faecalibacterium 2.48708
SB44.before.diet DrugBefore_YES Faecalibacterium -3.94492
SB5.before.diet DrugBefore_NO Faecalibacterium 2.97846
SB9.before.diet DrugBefore_NO Faecalibacterium 0.18865
SB11.before.diet DrugBefore_NO Unclassified_Lachnospiraceae -1.76550
SB16.before.diet DrugBefore_YES Unclassified_Lachnospiraceae 1.52752
SB18.before.diet DrugBefore_NO Unclassified_Lachnospiraceae -3.26271
SB28.before.diet DrugBefore_YES Unclassified_Lachnospiraceae -3.31515
SB29.before.diet DrugBefore_YES Unclassified_Lachnospiraceae 2.96551
SB34.before.diet DrugBefore_YES Unclassified_Lachnospiraceae 0.76738
SB36.before.diet DrugBefore_YES Unclassified_Lachnospiraceae -41.21786
SB39.before.diet DrugBefore_YES Unclassified_Lachnospiraceae -0.67973
SB4.before.diet DrugBefore_YES Unclassified_Lachnospiraceae 2.48559
SB41.before.diet DrugBefore_YES Unclassified_Lachnospiraceae 1.25219
SB43.before.diet DrugBefore_YES Unclassified_Lachnospiraceae -6.39665
SB44.before.diet DrugBefore_YES Unclassified_Lachnospiraceae -2.48715
SB5.before.diet DrugBefore_NO Unclassified_Lachnospiraceae 2.25583
SB9.before.diet DrugBefore_NO Unclassified_Lachnospiraceae 1.70266
SB11.before.diet DrugBefore_NO Lactobacillus 0.00000
SB16.before.diet DrugBefore_YES Lactobacillus -31.22348
SB18.before.diet DrugBefore_NO Lactobacillus 34.70052
SB28.before.diet DrugBefore_YES Lactobacillus 0.00000
SB29.before.diet DrugBefore_YES Lactobacillus 0.00000
SB34.before.diet DrugBefore_YES Lactobacillus 0.00000
SB36.before.diet DrugBefore_YES Lactobacillus 0.00000
SB39.before.diet DrugBefore_YES Lactobacillus 0.00000
SB4.before.diet DrugBefore_YES Lactobacillus 0.00000
SB41.before.diet DrugBefore_YES Lactobacillus 0.00000
SB43.before.diet DrugBefore_YES Lactobacillus -35.41640
SB44.before.diet DrugBefore_YES Lactobacillus -33.70196
SB5.before.diet DrugBefore_NO Lactobacillus 36.36195
SB9.before.diet DrugBefore_NO Lactobacillus 2.71054
SB11.before.diet DrugBefore_NO Enterococcus 0.00000
SB16.before.diet DrugBefore_YES Enterococcus 0.00000
SB18.before.diet DrugBefore_NO Enterococcus 7.27612
SB28.before.diet DrugBefore_YES Enterococcus 34.04440
SB29.before.diet DrugBefore_YES Enterococcus -44.75939
SB34.before.diet DrugBefore_YES Enterococcus -31.83823
SB36.before.diet DrugBefore_YES Enterococcus 0.00000
SB39.before.diet DrugBefore_YES Enterococcus 0.00000
SB4.before.diet DrugBefore_YES Enterococcus -0.07532
SB41.before.diet DrugBefore_YES Enterococcus 0.00000
SB43.before.diet DrugBefore_YES Enterococcus -34.83144
SB44.before.diet DrugBefore_YES Enterococcus 0.00000
SB5.before.diet DrugBefore_NO Enterococcus 32.19202
SB9.before.diet DrugBefore_NO Enterococcus 34.98928
SB11.before.diet DrugBefore_NO Alistipes 2.43748
SB16.before.diet DrugBefore_YES Alistipes -42.77756
SB18.before.diet DrugBefore_NO Alistipes 33.37860
SB28.before.diet DrugBefore_YES Alistipes 0.00000
SB29.before.diet DrugBefore_YES Alistipes 40.20153
SB34.before.diet DrugBefore_YES Alistipes -2.15976
SB36.before.diet DrugBefore_YES Alistipes 40.16614
SB39.before.diet DrugBefore_YES Alistipes -0.36869
SB4.before.diet DrugBefore_YES Alistipes 0.00000
SB41.before.diet DrugBefore_YES Alistipes 0.33700
SB43.before.diet DrugBefore_YES Alistipes 38.79366
SB44.before.diet DrugBefore_YES Alistipes 37.52562
SB5.before.diet DrugBefore_NO Alistipes -34.84467
SB9.before.diet DrugBefore_NO Alistipes 0.00000
SB11.before.diet DrugBefore_NO Lachnospiracea_incertae_sedis -2.71184
SB16.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -0.35930
SB18.before.diet DrugBefore_NO Lachnospiracea_incertae_sedis -6.31029
SB28.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -41.28979
SB29.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis 37.08624
SB34.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -0.76778
SB36.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -6.25811
SB39.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -0.84967
SB4.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis 1.23078
SB41.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -2.48689
SB43.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -8.50505
SB44.before.diet DrugBefore_YES Lachnospiracea_incertae_sedis -2.49022
SB5.before.diet DrugBefore_NO Lachnospiracea_incertae_sedis 0.45424
SB9.before.diet DrugBefore_NO Lachnospiracea_incertae_sedis -0.54878
SB11.before.diet DrugBefore_NO Clostridium_XI 2.63706
SB16.before.diet DrugBefore_YES Clostridium_XI -1.21486
SB18.before.diet DrugBefore_NO Clostridium_XI -39.44852
SB28.before.diet DrugBefore_YES Clostridium_XI 1.87974
SB29.before.diet DrugBefore_YES Clostridium_XI 36.23824
SB34.before.diet DrugBefore_YES Clostridium_XI 1.34436
SB36.before.diet DrugBefore_YES Clostridium_XI 1.54096
SB39.before.diet DrugBefore_YES Clostridium_XI 2.93050
SB4.before.diet DrugBefore_YES Clostridium_XI -0.44729
SB41.before.diet DrugBefore_YES Clostridium_XI -35.50361
SB43.before.diet DrugBefore_YES Clostridium_XI -42.58120
SB44.before.diet DrugBefore_YES Clostridium_XI 0.64679
SB5.before.diet DrugBefore_NO Clostridium_XI 6.06274
SB9.before.diet DrugBefore_NO Clostridium_XI 40.51255
SB11.before.diet DrugBefore_NO Blautia -4.89952
SB16.before.diet DrugBefore_YES Blautia -0.87893
SB18.before.diet DrugBefore_NO Blautia -3.25986
SB28.before.diet DrugBefore_YES Blautia -33.77494
SB29.before.diet DrugBefore_YES Blautia 35.50128
SB34.before.diet DrugBefore_YES Blautia 2.14952
SB36.before.diet DrugBefore_YES Blautia -3.82529
SB39.before.diet DrugBefore_YES Blautia -1.89048
SB4.before.diet DrugBefore_YES Blautia 38.18403
SB41.before.diet DrugBefore_YES Blautia -1.60224
SB43.before.diet DrugBefore_YES Blautia -7.12163
SB44.before.diet DrugBefore_YES Blautia -0.25723
SB5.before.diet DrugBefore_NO Blautia 4.16899
SB9.before.diet DrugBefore_NO Blautia 4.60541
SB11.before.diet DrugBefore_NO Erysipelotrichaceae_incertae_sedis -34.11297
SB16.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis 2.76812
SB18.before.diet DrugBefore_NO Erysipelotrichaceae_incertae_sedis -2.41464
SB28.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis 0.21500
SB29.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis -38.02761
SB34.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis 1.24483
SB36.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis -33.59293
SB39.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis 4.58586
SB4.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis 4.25315
SB41.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis -0.99628
SB43.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis 2.94895
SB44.before.diet DrugBefore_YES Erysipelotrichaceae_incertae_sedis 1.14560
SB5.before.diet DrugBefore_NO Erysipelotrichaceae_incertae_sedis 7.48980
SB9.before.diet DrugBefore_NO Erysipelotrichaceae_incertae_sedis 43.94687
SB11.before.diet DrugBefore_NO Roseburia -3.18365
SB16.before.diet DrugBefore_YES Roseburia 0.04566
SB18.before.diet DrugBefore_NO Roseburia -5.12992
SB28.before.diet DrugBefore_YES Roseburia -40.74033
SB29.before.diet DrugBefore_YES Roseburia 0.79558
SB34.before.diet DrugBefore_YES Roseburia -0.49839
SB36.before.diet DrugBefore_YES Roseburia -37.47557
SB39.before.diet DrugBefore_YES Roseburia -2.70796
SB4.before.diet DrugBefore_YES Roseburia 2.55271
SB41.before.diet DrugBefore_YES Roseburia 2.79839
SB43.before.diet DrugBefore_YES Roseburia -39.20063
SB44.before.diet DrugBefore_YES Roseburia -2.34940
SB5.before.diet DrugBefore_NO Roseburia 2.73959
SB9.before.diet DrugBefore_NO Roseburia 1.96199
SB11.before.diet DrugBefore_NO Escherichia_Shigella 34.22686
SB16.before.diet DrugBefore_YES Escherichia_Shigella 39.24637
SB18.before.diet DrugBefore_NO Escherichia_Shigella 0.00000
SB28.before.diet DrugBefore_YES Escherichia_Shigella 42.83156
SB29.before.diet DrugBefore_YES Escherichia_Shigella 0.00000
SB34.before.diet DrugBefore_YES Escherichia_Shigella -31.83823
SB36.before.diet DrugBefore_YES Escherichia_Shigella 0.00000
SB39.before.diet DrugBefore_YES Escherichia_Shigella 0.00000
SB4.before.diet DrugBefore_YES Escherichia_Shigella 0.00000
SB41.before.diet DrugBefore_YES Escherichia_Shigella -30.69626
SB43.before.diet DrugBefore_YES Escherichia_Shigella 0.00000
SB44.before.diet DrugBefore_YES Escherichia_Shigella 35.52563
SB5.before.diet DrugBefore_NO Escherichia_Shigella 10.35654
SB9.before.diet DrugBefore_NO Escherichia_Shigella 2.44751
SB11.before.diet DrugBefore_NO Unclassified_Clostridiales -1.07368
SB16.before.diet DrugBefore_YES Unclassified_Clostridiales 2.74164
SB18.before.diet DrugBefore_NO Unclassified_Clostridiales -1.75566
SB28.before.diet DrugBefore_YES Unclassified_Clostridiales -1.31551

(1.4.1.3.5.2.4.2.1.1.1) Widget 268. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by Drug.Before.Diet. Click to see HTML widget file in full window: ./1.4.1.3.5.2.4.2.1.1.1-3236f3195b5Dynamic.Pivot.Table.html

(1.4.1.3.5.2.4.2.1.1.1) Widget 269. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by Drug.Before.Diet. Click to see HTML widget file in full window: ./1.4.1.3.5.2.4.2.1.1.1-323613e24Dynamic.Pivot.Table.html

(1.4.1.3.5.2.4.2.1.1.1) Table 257. Summary table. Data grouped by Drug.Before.Diet. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.3.5.2.4.2.1.1.1-3233b3dc2d7.1.4.1.3.5.2.4.2.1.1.csv

feature Drug.Before.Diet mean sd median incidence
Lachnospiracea_incertae_sedis DrugBefore_NO -2.27917 2.99460 -1.630307 0.25
Lachnospiracea_incertae_sedis DrugBefore_YES -2.46898 18.69675 -1.668284 0.20
Unclassified_Bacteria DrugBefore_NO 1.63603 2.45118 0.937033 0.75
Unclassified_Bacteria DrugBefore_YES 4.14029 11.55738 0.650068 0.60
Erysipelotrichaceae_incertae_sedis DrugBefore_NO 3.72727 32.15266 2.537580 0.50
Erysipelotrichaceae_incertae_sedis DrugBefore_YES -5.54553 16.07771 1.195214 0.70
Clostridium_XlVa DrugBefore_NO 1.02398 3.01184 0.765822 0.50
Clostridium_XlVa DrugBefore_YES -2.20003 11.28912 0.890269 0.80
Clostridium_XVIII DrugBefore_NO 9.44645 19.62899 0.955009 0.75
Clostridium_XVIII DrugBefore_YES -2.15951 19.12884 1.498749 0.70
Bacteroides DrugBefore_NO 0.49394 1.00280 0.342286 0.75
Bacteroides DrugBefore_YES 1.34194 2.64019 0.184496 0.70
Clostridium_XI DrugBefore_NO 2.44096 32.74818 4.349900 0.75
Clostridium_XI DrugBefore_YES -3.51664 21.81133 0.995576 0.60
Roseburia DrugBefore_NO -0.90300 3.85335 -0.610830 0.50
Roseburia DrugBefore_YES -11.67799 19.04734 -1.423892 0.40
Clostridium_IV DrugBefore_NO -0.14875 26.20597 0.395281 0.50
Clostridium_IV DrugBefore_YES 7.35500 15.21187 0.715471 0.60
Unclassified_Clostridiales DrugBefore_NO -0.16487 2.08900 -0.903441 0.25
Unclassified_Clostridiales DrugBefore_YES 3.11608 12.45724 -0.077225 0.50
Unclassified_Lachnospiraceae DrugBefore_NO -0.26743 2.67482 -0.031421 0.50
Unclassified_Lachnospiraceae DrugBefore_YES -4.50984 13.22264 0.043822 0.50
Prevotella DrugBefore_NO -3.26579 3.42925 -4.140100 0.25
Prevotella DrugBefore_YES -6.10443 21.08787 -0.657156 0.40
Flavonifractor DrugBefore_NO 0.30288 4.01282 1.743693 0.75
Flavonifractor DrugBefore_YES -2.17834 20.57071 0.798489 0.60
Blautia DrugBefore_NO 0.15375 4.93720 0.454561 0.50
Blautia DrugBefore_YES 2.64841 20.72550 -1.240585 0.30
Faecalibacterium DrugBefore_NO -1.64624 4.58360 -0.868466 0.50
Faecalibacterium DrugBefore_YES -0.47705 18.50534 -0.039188 0.50
Escherichia_Shigella DrugBefore_NO 11.75773 15.61783 6.402026 0.75
Escherichia_Shigella DrugBefore_YES 5.50691 26.43559 0.000000 0.30
Unclassified_Bacteroidales DrugBefore_NO -1.80694 5.12597 -3.775731 0.25
Unclassified_Bacteroidales DrugBefore_YES 4.53802 11.05276 0.626605 0.70
Unclassified_Ruminococcaceae DrugBefore_NO -0.75615 3.57958 -1.759812 0.25
Unclassified_Ruminococcaceae DrugBefore_YES 4.51960 12.23942 1.333740 0.70
Ruminococcus DrugBefore_NO 7.00479 19.56447 -2.195992 0.25
Ruminococcus DrugBefore_YES 0.43648 18.62136 0.164894 0.50
Unclassified_Firmicutes DrugBefore_NO -0.54533 3.37779 -1.662897 0.25
Unclassified_Firmicutes DrugBefore_YES 0.18734 23.51028 2.054333 0.60
Dorea DrugBefore_NO 0.81633 3.09277 1.023113 0.50
Dorea DrugBefore_YES -13.15783 24.69688 -16.216630 0.40
Clostridium_sensu_stricto DrugBefore_NO 10.92982 34.29385 18.139742 0.50
Clostridium_sensu_stricto DrugBefore_YES 1.22931 29.34287 0.000000 0.40
Parabacteroides DrugBefore_NO -1.28503 1.47435 -1.232586 0.25
Parabacteroides DrugBefore_YES -5.66826 14.53075 0.000000 0.40
Veillonella DrugBefore_NO -18.34917 22.74191 -19.506517 0.25
Veillonella DrugBefore_YES -0.17027 23.27679 0.000000 0.30
Streptococcus DrugBefore_NO 1.64183 30.24170 0.666755 0.50
Streptococcus DrugBefore_YES -3.40643 25.19625 -1.131536 0.40
Alistipes DrugBefore_NO 0.24285 27.89258 1.218738 0.50
Alistipes DrugBefore_YES 11.17179 27.34420 0.168499 0.50
Gemmiger DrugBefore_NO -7.96814 17.51040 0.007638 0.50
Gemmiger DrugBefore_YES -0.14354 1.32030 0.000000 0.20
Enterococcus DrugBefore_NO 18.61435 17.58352 19.734070 0.75
Enterococcus DrugBefore_YES -7.74600 23.06832 0.000000 0.10
Sutterella DrugBefore_NO 6.88656 16.90607 -1.103979 0.25
Sutterella DrugBefore_YES 10.62961 17.54181 0.000000 0.40
Turicibacter DrugBefore_NO 10.16254 17.29928 2.378859 0.50
Turicibacter DrugBefore_YES -0.67442 28.88381 0.000000 0.30
Lactobacillus DrugBefore_NO 18.44325 19.77414 18.705532 0.75
Lactobacillus DrugBefore_YES -10.03418 16.18710 0.000000 0.00
Unclassified_Enterobacteriaceae DrugBefore_NO 18.42227 21.32607 17.494638 0.50
Unclassified_Enterobacteriaceae DrugBefore_YES -10.50706 17.53120 0.000000 0.20
Akkermansia DrugBefore_NO 0.84844 1.69689 0.000000 0.25
Akkermansia DrugBefore_YES 6.94579 16.35478 0.000000 0.20
Unclassified_Lactobacillales DrugBefore_NO 9.48478 15.37868 2.873557 0.50
Unclassified_Lactobacillales DrugBefore_YES -6.44700 13.59982 0.000000 0.00
Megamonas DrugBefore_NO 8.04801 16.09601 0.000000 0.25
Megamonas DrugBefore_YES 0.00000 0.00000 0.000000 0.00
Odoribacter DrugBefore_NO -1.15524 3.24448 0.000000 0.25
Odoribacter DrugBefore_YES 3.83345 12.46927 0.000000 0.10
Unclassified_Burkholderiales DrugBefore_NO 0.00000 0.00000 0.000000 0.00
Unclassified_Burkholderiales DrugBefore_YES 2.91183 10.27022 0.000000 0.10
Parasutterella DrugBefore_NO -1.02316 2.04633 0.000000 0.00
Parasutterella DrugBefore_YES 0.01845 0.05834 0.000000 0.10

(1.4.1.3.5.2.4.2.1.1.1) Figure 801. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/3233b7d741c.svg.

(1.4.1.3.5.2.4.2.1.1.1) Figure 802. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/323724ce1db.svg.

(1.4.1.3.5.2.4.2.1.1.1) Figure 803. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3237b5c6f6b.svg.

(1.4.1.3.5.2.4.2.1.1.1) Figure 804. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3236fddd196.svg.

(1.4.1.3.5.2.4.2.1.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.3.5.2.4.2.1.2.1) Figure 805. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/32314122edf.svg.

(1.4.1.3.5.2.4.2.1.2.1) Figure 806. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3236f422d5a.svg.

(1.4.1.3.5.2.4.2.1.2.1) Figure 807. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/323fb9f85b.svg.

(1.4.1.3.5.2.4.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.4.1.3.5.2.4.2.2.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.3.5.2.4.2.2.1.1) Figure 808. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/32339e0ff15.svg.

(1.4.1.3.5.2.4.2.2.1.1) Figure 809. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/32336600d8c.svg.

(1.4.1.3.5.2.4.2.2.1.1) Figure 810. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/323505b0ea9.svg.

(1.4.1.3.5.2.4.2.2.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.3.5.2.4.2.2.2.1) Figure 811. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/323759a6940.svg.

(1.4.1.3.5.2.4.2.2.2.1) Figure 812. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3237ddfe52c.svg.

(1.4.1.3.5.2.4.2.2.2.1) Figure 813. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3232b310134.svg.

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